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Dear Andrade,

I think this has been answered in your other thread. But to recap, if you are running cluster _without_ the --mm option the reported co-ordinates will be in voxels, and hence always positive.

Hope this helps,

Kind Regards

Matthew

--------------------------------
Dr Matthew Webster
FMRIB Centre
John Radcliffe Hospital
University of Oxford

On 10 Sep 2019, at 23:37, Renew Andrade <[log in to unmask]> wrote:

Dear experts:
I have been taught different possible ways of doing vbm in fsl but I cannot get right results. I’m using COBRE dataset with schizophrenia subjects. 148 subjects I have 76 controls and 72 patients. I do every step as told and try to do randomise with smoothed and unsmoothed images but none give me a good result with cluster. I attach the outcome so you can inspect if you find it weird. In my opinion as it is published there should be negative coordinates as well.

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I have tried with

randomise -i GM_mod_merg_s3.5 -o tmp -m GM_mask \ -d design.mat -t design.con -n 10 -T

And

randomise -i GM_mod_merg_s3 -o tmp -m GM_mask \ -d design.mat -t design.con -n 100 -T

But none gives me a good result.

Thanks in advance!

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<cluster_info_1.txt><cluster_info_2.txt><cluster_info_3.txt><cluster_info_4.txt>

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